DreEX0063827 @ danRer10
Exon Skipping
Gene
ENSDARG00000057737 | rxraa
Description
retinoid X receptor, alpha a [Source:ZFIN;Acc:ZDB-GENE-070314-2]
Coordinates
chr21:17872474-17879973:+
Coord C1 exon
chr21:17872474-17872624
Coord A exon
chr21:17873782-17873961
Coord C2 exon
chr21:17879804-17879973
Length
180 bp
Sequences
Splice sites
3' ss Seq
TGCTTTTTGTCTTTGCTCAGGTA
3' ss Score
9.35
5' ss Seq
AAGGTACAG
5' ss Score
8.04
Exon sequences
Seq C1 exon
TTGAACTCGCCCATGAACTCTGTCAGCAGCTCAGAGGATATTAAGCCGCCCTTAGGCCTCAACGGTGTGATGAAGGTTCCAGCCCAGCCCTCGGGCACCCCACTCTCTCTCACCAAACACATCTGTGCCATCTGTGGCGACCGCTCCTCAG
Seq A exon
GTAAACACTACGGTGTGTACAGCTGCGAGGGATGTAAGGGTTTCTTCAAGAGGACAGTGCGTAAAGACCTGACCTACACCTGTCGAGACAATAAGGACTGTGTTATAGACAAACGCCAGCGCAACCGCTGCCAGTACTGCCGCTATCAGAAGTGTTTGGCCATGGGCATGAAGAGAGAAG
Seq C2 exon
CCGTCCAGGAGGAGCGCCAGCGAGCCAAGGAACGCAGTGAGAACGAAGTGGAGTCGACCAGCAGCGCCAATGAAGACATGCCCGTGGAGAAGATACTGGAAGCAGAGCTTGCTGTGGAGCCCAAGACGGAAACTTACATTGAGACTAATGTACCCATGCCATCAAATTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000057737-'7-12,'7-9,9-12
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.593 A=0.000 C2=0.632
Domain overlap (PFAM):
C1:
PF118253=Nuc_recep-AF1=PD(29.5=64.7),PF0010513=zf-C4=PU(15.7=21.6)
A:
PF0010513=zf-C4=PD(82.9=95.1)
C2:
PF0010425=Hormone_recep=PU(11.9=21.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCGCCCATGAACTCTGTCAG
R:
TCCAGTATCTTCTCCACGGGC
Band lengths:
246-426
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]